DOA4 / YDR069C Overview


Standard Name
DOA4 1
Systematic Name
YDR069C
SGD ID
SGD:S000002476
Aliases
DOS1 3 , MUT4 7 , NPI2 8 9 , SSV7 10 , UBP4 11
Feature Type
ORF , Verified
Description
Ubiquitin hydrolase; deubiquitinates intralumenal vesicle (ILVs) cargo proteins; required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins destined for the vacuole; DOA4 has a paralog, UBP5, that arose from the whole genome duplication 2 3 4 5 6
Name Description
Degradation Of Alpha 1
Paralog
UBP5 5
Comparative Info
Sequence Details

Sequence

The S. cerevisiae Reference Genome sequence is derived from laboratory strain S288C. Download DNA or protein sequence, view genomic context and coordinates. Click "Sequence Details" to view all sequence information for this locus, including that for other strains.


Summary
DOA4 has a paralog, UBP5, that arose from the whole genome duplication
Protein Details

Protein

Basic sequence-derived (length, molecular weight, isoelectric point) and experimentally-determined (median abundance, median absolute deviation) protein information. Click "Protein Details" for further information about the protein such as half-life, abundance, domains, domains shared with other proteins, protein sequence retrieval for various strains, physico-chemical properties, protein modification sites, and external identifiers for the protein.


Length (a.a.)
926
Mol. Weight (Da)
105200.9
Isoelectric Point
8.27
Median Abundance (molecules/cell)
1408 +/- 866

Alleles

Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.


View all DOA4 alleles in SGD search

Gene Ontology Details

Gene Ontology

GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. SGD has manually curated and high-throughput GO Annotations, both derived from the literature, as well as computational, or predicted, annotations. Click "Gene Ontology Details" to view all GO information and evidence for this locus as well as biological processes it shares with other genes.


Summary
Thiol-dependent ubiquitin-specific protease involved in ubiquitin homeostasis, free ubiquitin chain depolymerization, and ubiquitin-dependent protein catabolism via the multivesicular body sorting pathway; involved in endocytosis, intraluminal vesicle formation, ATP export, and regulation of DNA replication; localizes to the endosome and associates with the proteasome

View computational annotations

Molecular Function

Manually Curated

Cellular Component

Manually Curated
Phenotype Details

Phenotype

Phenotype annotations for a gene are curated single mutant phenotypes that require an observable (e.g., "cell shape"), a qualifier (e.g., "abnormal"), a mutant type (e.g., null), strain background, and a reference. In addition, annotations are classified as classical genetics or high-throughput (e.g., large scale survey, systematic mutation set). Whenever possible, allele information and additional details are provided. Click "Phenotype Details" to view all phenotype annotations and evidence for this locus as well as phenotypes it shares with other genes.


Summary
Non-essential gene; null mutation confers increased sensitivity to elevated temperature, oxidative stress, canavanine, sulfometuron; conditional allele causes petite phenotype indicating respiratory deficiency; in systematic studies mutants exhibit increased sensitivity to multiple chemicals, including rapamycin, cycloheximide, tunicamycin, caffeine, Congo Red, ethanol
Interaction Details

Interaction

Interaction annotations are curated by BioGRID and include physical or genetic interactions observed between at least two genes. An interaction annotation is composed of the interaction type, name of the interactor, assay type (e.g., Two-Hybrid), annotation type (e.g., manual or high-throughput), and a reference, as well as other experimental details. Click "Interaction Details" to view all interaction annotations and evidence for this locus, including an interaction visualization.


Summary
The doa4 null mutant is viable; the null mutant of paralog ubp5 is viable; the doa4 ubp5 double mutant has not been annotated for phenotype.

380 total interactions for 290 unique genes

Physical Interactions

  • Affinity Capture-MS: 16
  • Affinity Capture-RNA: 4
  • Affinity Capture-Western: 6
  • Biochemical Activity: 1
  • Co-localization: 1
  • Co-purification: 2
  • PCA: 9
  • Reconstituted Complex: 5
  • Two-hybrid: 3

Genetic Interactions

  • Dosage Growth Defect: 3
  • Dosage Lethality: 3
  • Dosage Rescue: 5
  • Negative Genetic: 175
  • Phenotypic Enhancement: 15
  • Phenotypic Suppression: 44
  • Positive Genetic: 37
  • Synthetic Growth Defect: 10
  • Synthetic Lethality: 14
  • Synthetic Rescue: 27
Regulation Details

Regulation

The number of putative Regulators (genes that regulate it) and Targets (genes it regulates) for the given locus, based on experimental evidence. This evidence includes data generated through high-throughput techniques. Click "Regulation Details" to view all regulation annotations, shared GO enrichment among regulation Targets, and a regulator/target diagram for the locus.


Regulators
3
Targets
0
Expression Details

Expression

Expression data are derived from records contained in the Gene Expression Omnibus (GEO), and are first log2 transformed and normalized. Referenced datasets may contain one or more condition(s), and as a result there may be a greater number of conditions than datasets represented in a single clickable histogram bar. The histogram division at 0.0 separates the down-regulated (green) conditions and datasets from those that are up-regulated (red). Click "Expression Details" to view all expression annotations and details for this locus, including a visualization of genes that share a similar expression pattern.


Literature Details

Literature

All manually curated literature for the specified gene, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review). Click "Literature Details" to view all literature information for this locus, including shared literature between genes.


Primary
85
Additional
87
Reviews
32

Resources